Brand  (β version)

PDB ID: 2UUB

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Ligands
Code Name Style Show Link
K Potassium ion PoSSuM
MG Magnesium ion PoSSuM
PAR Paromomycin PoSSuM
ZN Zinc ion PoSSuM
Non-standard Residues
Code Name Show
6MZ N6-methyladenosine-5'-monophosphate
CM0 5-(carboxymethoxy) uridine-5'-monophosphate
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 2UUB   PDBj   RCSB PDB   PDBe
Header : RIBOSOME
Title : Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a Valine-ASL with cmo5U in position 34 bound to an mRNA with a GUU-codon in the A-site and paromomycin.
Release Data : 2007-05-15
Compound :
mol_id molecule chains
1 16S Ribosomal RNA A
other_details: CHAIN A (16S RNA) HAS E.COLI NUMBERING, BASED ON A STRUCTURAL ALIGNMENT WITH THE CORRESPONDING E.COLI STRUCTURE IN 2AVY
mol_id molecule chains
2 30S RIBOSOMAL PROTEIN S2 B
mol_id molecule chains
3 30S RIBOSOMAL PROTEIN S3 C
mol_id molecule chains
4 30S RIBOSOMAL PROTEIN S4 D
mol_id molecule chains
5 30S RIBOSOMAL PROTEIN S5 E
mol_id molecule chains synonym
6 30S RIBOSOMAL PROTEIN S6 F TS9
mol_id molecule chains
7 30S RIBOSOMAL PROTEIN S7 G
mol_id molecule chains
8 30S RIBOSOMAL PROTEIN S8 H
mol_id molecule chains
9 30S RIBOSOMAL PROTEIN S9 I
mol_id molecule chains
10 30S RIBOSOMAL PROTEIN S10 J
mol_id molecule chains
11 30S RIBOSOMAL PROTEIN S11 K
mol_id molecule chains
12 30S RIBOSOMAL PROTEIN S12 L
mol_id molecule chains
13 30S RIBOSOMAL PROTEIN S13 M
mol_id molecule chains
14 30S RIBOSOMAL PROTEIN S14 N
mol_id molecule chains
15 30S RIBOSOMAL PROTEIN S15 O
mol_id molecule chains
16 30S RIBOSOMAL PROTEIN S16 P
mol_id molecule chains
17 30S RIBOSOMAL PROTEIN S17 Q
mol_id molecule chains
18 30S RIBOSOMAL PROTEIN S18 R
mol_id molecule chains
19 30S RIBOSOMAL PROTEIN S19 S
mol_id molecule chains
20 30S RIBOSOMAL PROTEIN S20 T
mol_id molecule chains
21 30S RIBOSOMAL PROTEIN THX U
mol_id molecule chains synonym
22 5'-R(*GP*UP*UP*AP*AP*AP)-3' X RNA
mol_id molecule chains synonym
23 5'-R(*CP*CP*UP*CP*CP*CP*UP*CM0P*AP*CP*6MZP*AP *GP*GP*AP*GP*G)-3' Y RNA
Source :
mol_id organism_scientific
1 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
2 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
3 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
4 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
5 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
6 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
7 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
8 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
9 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
10 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
11 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
12 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
13 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
14 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
15 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
16 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
17 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
18 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
19 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
20 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
21 THERMUS THERMOPHILUS  (taxid:300852)
strain: HB8
mol_id organism_scientific
22 Synthetic construct  (taxid:32630)
synthetic: yes
mol_id organism_scientific
23 Synthetic construct  (taxid:32630)
synthetic: yes
Authors : Weixlbaumer, A., Murphy, F.V., Dziergowska, A., Malkiewicz, A., Vendeix, F.A.P., Agris, P.F., Ramakrishnan, V.
Keywords : TRNA-BINDING, RRNA-BINDING, METAL-BINDING, ZINC-FINGER, TRANSLATION, COILED COIL, PAROMOMYCIN, TRNA, ZINC, MRNA, CMO5U, RIBOSOME, RNA-BINDING, MODIFICATIONS, RIBOSOMAL PROTEIN, RIBONUCLEOPROTEIN
Exp. method : X-RAY DIFFRACTION ( 2.80 Å )
Citation :

Mechanism for Expanding the Decoding Capacity of Transfer Rnas by Modification of Uridines

Weixlbaumer, A.,Murphy, F.V.,Dziergowska, A.  et al.
(2007)  Nat.Struct.Mol.Biol.  14 : 498

PubMed: 17496902
DOI: 10.1038/NSMB1242

Reaction

Chain : B
UniProt : P80371 (RS2_THET8)
Reaction : -
Chain : C
UniProt : P80372 (RS3_THET8)
Reaction : -
Chain : D
UniProt : P80373 (RS4_THET8)
Reaction : -
Chain : E
UniProt : Q5SHQ5 (RS5_THET8)
Reaction : -
Chain : F
UniProt : Q5SLP8 (RS6_THET8)
Reaction : -
Chain : G
UniProt : P17291 (RS7_THET8)
Reaction : -
Chain : H
UniProt : Q5SHQ2 (RS8_THET8)
Reaction : -
Chain : I
UniProt : P80374 (RS9_THET8)
Reaction : -
Chain : J
UniProt : Q5SHN7 (RS10_THET8)
Reaction : -
Chain : K
UniProt : P80376 (RS11_THET8)
Reaction : -
Chain : L
UniProt : Q5SHN3 (RS12_THET8)
Reaction : -
Chain : M
UniProt : P80377 (RS13_THET8)
Reaction : -
Chain : N
UniProt : Q5SHQ1 (RS14Z_THET8)
Reaction : -
Chain : O
UniProt : Q5SJ76 (RS15_THET8)
Reaction : -
Chain : P
UniProt : Q5SJH3 (RS16_THET8)
Reaction : -
Chain : Q
UniProt : Q5SHP7 (RS17_THET8)
Reaction : -
Chain : R
UniProt : Q5SLQ0 (RS18_THET8)
Reaction : -
Chain : S
UniProt : Q5SHP2 (RS19_THET8)
Reaction : -
Chain : T
UniProt : P80380 (RS20_THET8)
Reaction : -
Chain : U
UniProt : Q5SIH3 (RSHX_THET8)
Reaction : -